Locus 4549

Sequence ID 2L_DroMel_CAF1
Location 13,027,415 – 13,027,513
Length 98
Max. P 0.920984
window7169 window7170

overview

Window 9

Location 13,027,415 – 13,027,513
Length 98
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 75.90
Mean single sequence MFE -46.68
Consensus MFE -28.62
Energy contribution -28.48
Covariance contribution -0.14
Combinations/Pair 1.31
Mean z-score -1.44
Structure conservation index 0.61
SVM decision value 0.32
SVM RNA-class probability 0.687580
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13027415 98 + 22407834
----------GUGGCUUUCCGCCCGCCAACGCCAAAGCAAGUCCGCUUAGAGCGCUGGCGUUCGGAGUUGGCGAGUGCUGGGCCUCCUGUAUGGCCCGCUGCAGCAGA
----------(..((....(((.(((((((.((.((((......)))).(((((....))))))).))))))).)))..(((((........)))))))..)...... ( -46.80)
>DroVir_CAF1 8745 108 + 1
GUGCCCGGCGGACACUUGCCGGUGGCUAGCGCCAAGGCCAACCCGCUCAAUGCACUGGCAUUGGGCGUCGGCGAAUGCUGUGCCUCCUGUAUGGCACGCUGCAGCAGA
.(((.((((((.((.((((((((((((........)))).)))((((((((((....))))))))))..))))).))))(((((........)))))))))..))).. ( -50.90)
>DroPse_CAF1 8155 98 + 1
----------CUGACUUUCCGCUAGCCAGGGCCAAGGCUAGGCCACUCAGAGCGCUGGCGUUCGGUGUCGGUGAGUGCUGGGCCUCCUGGAUGGCCCGCUGCAGCAGU
----------..........(((.((..((((((...(((((...(((((..((((((((.....))))))))....)))))...))))).))))))...)))))... ( -42.20)
>DroWil_CAF1 8324 98 + 1
----------ACGACUUGCUACCGGCUAACGCCAGGGCCAGGCCACUAAGAGCACUGGCAUUGGGCGUUGGCGAUUGUUGGGCCUCCUGUAUGGCCCGUUGCAGCAGG
----------....((((((....(((((((((...(((((((........)).)))))....)))))))))....((((((((........))))))..)))))))) ( -47.30)
>DroAna_CAF1 971 108 + 1
GCACCCGGCGGAUGUUUUCCGCCCGCCAACGCCAAGGCAAGGCCGCUCAGAGCGCUGGAGUUGGGCGUGGGUGAGUGUUGGGCCUCCUGUAUGGCCCGCUGAAGCAGU
.(((((((((((.....))))))(((((((.(((.(((...)))((.....))..))).))).)))).)))))......(((((........)))))((....))... ( -50.70)
>DroPer_CAF1 8162 98 + 1
----------CUGACUUUCCGCUAGCCAGGGCCAAGGCUAGGCCACUCAGAGCGCUGGCGUUCGGUGUCGGUGAGUGCUGGGCCUCCUGGAUGGCCCGCUGCAGCAGU
----------..........(((.((..((((((...(((((...(((((..((((((((.....))))))))....)))))...))))).))))))...)))))... ( -42.20)
>consensus
__________GUGACUUUCCGCCAGCCAACGCCAAGGCAAGGCCACUCAGAGCGCUGGCGUUCGGCGUCGGCGAGUGCUGGGCCUCCUGUAUGGCCCGCUGCAGCAGU
........................(((.(((((((.(((((((........)).))))).)).))))).)))...(((((((((........))))).....)))).. (-28.62 = -28.48 +  -0.14)

alignment

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secondary structure

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dotplot

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Window 0

Location 13,027,415 – 13,027,513
Length 98
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 75.90
Mean single sequence MFE -43.68
Consensus MFE -28.57
Energy contribution -28.10
Covariance contribution -0.47
Combinations/Pair 1.43
Mean z-score -1.70
Structure conservation index 0.65
SVM decision value 1.14
SVM RNA-class probability 0.920984
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13027415 98 - 22407834
UCUGCUGCAGCGGGCCAUACAGGAGGCCCAGCACUCGCCAACUCCGAACGCCAGCGCUCUAAGCGGACUUGCUUUGGCGUUGGCGGGCGGAAAGCCAC----------
...(((...(((((((........))))).))..........((((..((((((((((..(((((....))))).))))))))))..)))).)))...---------- ( -47.30)
>DroVir_CAF1 8745 108 - 1
UCUGCUGCAGCGUGCCAUACAGGAGGCACAGCAUUCGCCGACGCCCAAUGCCAGUGCAUUGAGCGGGUUGGCCUUGGCGCUAGCCACCGGCAAGUGUCCGCCGGGCAC
..((((.(.(((((((........))))).(((((.((((.(((.((((((....)))))).)))(((((((......)))))))..)))).)))))..)).))))). ( -48.20)
>DroPse_CAF1 8155 98 - 1
ACUGCUGCAGCGGGCCAUCCAGGAGGCCCAGCACUCACCGACACCGAACGCCAGCGCUCUGAGUGGCCUAGCCUUGGCCCUGGCUAGCGGAAAGUCAG----------
.(((((((...((((((...((((((((....(((((..(....)((.((....)).))))))))))))..)))))))))..)).)))))........---------- ( -36.60)
>DroWil_CAF1 8324 98 - 1
CCUGCUGCAACGGGCCAUACAGGAGGCCCAACAAUCGCCAACGCCCAAUGCCAGUGCUCUUAGUGGCCUGGCCCUGGCGUUAGCCGGUAGCAAGUCGU----------
..((((((...(((((........))))).......((.((((((....(((((.(((......))))))))...)))))).))..))))))......---------- ( -43.20)
>DroAna_CAF1 971 108 - 1
ACUGCUUCAGCGGGCCAUACAGGAGGCCCAACACUCACCCACGCCCAACUCCAGCGCUCUGAGCGGCCUUGCCUUGGCGUUGGCGGGCGGAAAACAUCCGCCGGGUGC
...((....))(((((........)))))......(((((.((((.(((.((((.((.....))(((...))))))).)))))))((((((.....))))))))))). ( -50.20)
>DroPer_CAF1 8162 98 - 1
ACUGCUGCAGCGGGCCAUCCAGGAGGCCCAGCACUCACCGACACCGAACGCCAGCGCUCUGAGUGGCCUAGCCUUGGCCCUGGCUAGCGGAAAGUCAG----------
.(((((((...((((((...((((((((....(((((..(....)((.((....)).))))))))))))..)))))))))..)).)))))........---------- ( -36.60)
>consensus
ACUGCUGCAGCGGGCCAUACAGGAGGCCCAGCACUCACCGACGCCCAACGCCAGCGCUCUGAGCGGCCUAGCCUUGGCGCUGGCCAGCGGAAAGUCAC__________
.((((((....(((((........)))))....................(((((((((..(.((......)))..))))))))))))))).................. (-28.57 = -28.10 +  -0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:48 2006